It sounds like it would be a lot of work to really implement this (as would using prezi itself), but I think if you really thought visually and outside the box you could make a slide show that was really something. I’d love to use this for the web course teach. Anytime I can use examples based on web technologies as teaching tools is a good thing.

Impress.js : a presentation framework based on the power of CSS3 transforms and transitions in modern browsers